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Good day,
I am trying to install Lastz to use with AliTV.
I downloaded lastz-1.04.03. After using "make" in the src folder I get the following error:
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~…
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Hi,
When I run multiz with the following commands: `multiz M=1 /home/dell/Documents/MH/numt_primate/lastz_out/primates_nets/_MZ_2222467_left.maf1 /home/dell/Documents/MH/numt_primate/lastz_out/prima…
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Hello, got an error at last Clean chains step: ### Clean Chains Step ###
Chains were filled: using /users/hpctestuser/mprylutskyi/makechains/make_lastz_chains/deschrambler_test_files/temp_chain_run…
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Hi @kirilenkobm and @MichaelHiller,
Thank you for providing this pipeline!
I am using make_lastz_chains version 2.0.8 in our Slurm cluster. When I run the test example `./make_chains.py target q…
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I'm trying to help a researcher speed up `make_chains.py` results for a mammal. Using [this closed issue regarding parallelization](https://github.com/hillerlab/make_lastz_chains/issues/2), as inspir…
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Hi everyone,
I am using haplomerge2 for spliting a diploid genome. After runging sh ./hm.batchA1, the output directory /path/to/raw.axt/ is empty. I checked two log files.
The _A1.initiation.log is …
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Hello mahulchak,
After I run svmu with a genome with two reference genomes, the out put of **cm.lastz.txt** and **sv.lastz.txt** shows no complete chromosomes for one reference genome .
The code …
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I am running an analysis on two genomes - one with a pseudochromosome level assembly, the other with a scaffold level assembly. Using the provided command for lastz took several days for the program t…
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Hi,I'm hoping you could provide some guidance or suggestions.
my command: ./make_chains.py hg38 Ea /data/groups/home/make_lastz_chains/genome/hg38.2bit /data/groups/home/make_lastz_chains/genome/Ea…
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On RHEL8, nextflow 23.10.0, anaconda/3-2023.09 on a shared HPC cluster, running the below example from [Running the pipeline](https://github.com/hillerlab/make_lastz_chains?tab=readme-ov-file#running-…